Studying the unfolding process of protein G and protein L under physical property space
Background: The studies on protein folding/unfolding indicate that the native state topology is an important determinant of protein folding mechanism. The folding/unfolding behaviors of proteins which have similar topologies have been studied under Cartesian space and the resuits indicate that some proteins share the similar folding/unfolding characters.Results: We construct physical property space with twelve different physical properties. By studying the unfolding process of the protein G and protein L under the property space, we find that the two proteins have the similar unfolding pathways that can be divided into three types and the one which with the umbrella-shape represents the preferred pathway. Moreover, the unfolding simulation time of the two proteins is different and protein L unfolding faster than protein G. Additionally, the distributing area of unfolded state ensemble of protein L is larger than that of protein G.Conclusions: Under the physical property space, the protein G and protein L have the similar folding/unfolding behaviors, which agree with the previous results obtained from the studies under Cartesian coordinate space. At the same time, some different unfolding properties can be detected easily, which can not be analyzed under Cartesian coordinate space.
Liling Zhao Jihua Wang Xianghua Dou Zanxia Cao
Key Lab of Biophysics in universities of Shandong (Dezhou University), Dezhou 253023, China Department of Physics, Dezhou University, Dezhou 253023, China
国际会议
The 7th Asia-Pacific Bioinformatics Conference(第七届亚太生物信息学大会)
北京
英文
505-512
2009-01-01（万方平台首次上网日期，不代表论文的发表时间）